Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 38 of 214
Found at i:10450378 original size:29 final size:28
Alignment explanation
Indices: 10450324--10450482 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 28
10450314 AATTATATAA
* *
10450324 AATTGGATTAGTGTTAGGGTTTTTAATT
1 AATTGGGTTAGGGTTAGGGTTTTTAATT
* *
10450352 AAGTTAGGTTAAGGTTAGGGTTTTTAATT
1 AA-TTGGGTTAGGGTTAGGGTTTTTAATT
10450381 --TTGGG-TAGGGTTAGGGTTTTTAATT
1 AATTGGGTTAGGGTTAGGGTTTTTAATT
*
10450406 GAATTGGGTTAGGGTTAGAGTTTTTAATT
1 -AATTGGGTTAGGGTTAGGGTTTTTAATT
*
10450435 AAATTGGGTTAGGGTTAGGGTTTTTAACTG
1 -AATTGGGTTAGGGTTAGGGTTTTTAA-TT
10450465 AATTGGGTTAGGGTTAGG
1 AATTGGGTTAGGGTTAGG
10450483 AATAAACTTC
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
25 19 0.17
26 4 0.03
28 7 0.06
29 84 0.73
30 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (28 bp):
AATTGGGTTAGGGTTAGGGTTTTTAATT
Found at i:10450400 original size:54 final size:56
Alignment explanation
Indices: 10450325--10450481 Score: 194
Period size: 54 Copynumber: 2.8 Consensus size: 56
10450315 ATTATATAAA
* * *
10450325 ATTGGATTAGTGTTAGGGTTTTTAATT-AAGTTAGGTTAAGGTTAGGGTTTTTAATT
1 ATTGGGTTAGGGTTAGGGTTTTTAATTGAA-TTAGGTTAAGGTTAGAGTTTTTAATT
* *
10450381 -TTGGG-TAGGGTTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGAGTTTTTAATT
1 ATTGGGTTAGGGTTAGGGTTTTTAATTGAATTAGGTTAAGGTTAGAGTTTTTAATT
* * *
10450435 AAATTGGGTTAGGGTTAGGGTTTTTAACTGAATTGGGTTAGGGTTAG
1 --ATTGGGTTAGGGTTAGGGTTTTTAATTGAATTAGGTTAAGGTTAG
10450482 GAATAAACTT
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
54 42 0.47
55 6 0.07
57 5 0.06
58 37 0.41
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.45
Consensus pattern (56 bp):
ATTGGGTTAGGGTTAGGGTTTTTAATTGAATTAGGTTAAGGTTAGAGTTTTTAATT
Found at i:10450418 original size:23 final size:24
Alignment explanation
Indices: 10450364--10450421 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
10450354 GTTAGGTTAA
**
10450364 GGTTAGGGTTTTTAATTTTGGGTAG
1 GGTTAGGGTTTTTAA-TTTGAATAG
*
10450389 GGTTAGGGTTTTTAA-TTGAATTG
1 GGTTAGGGTTTTTAATTTGAATAG
10450412 GGTTAGGGTT
1 GGTTAGGGTT
10450422 AGAGTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 15 0.50
25 15 0.50
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (24 bp):
GGTTAGGGTTTTTAATTTGAATAG
Found at i:10451010 original size:18 final size:18
Alignment explanation
Indices: 10450984--10451024 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10450974 GGACTCGAAA
10450984 AAGGATACATATAAGGGT
1 AAGGATACATATAAGGGT
*
10451002 AAGGGTACATATAAGGGT
1 AAGGATACATATAAGGGT
*
10451020 TAGGA
1 AAGGA
10451025 AACGCACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (18 bp):
AAGGATACATATAAGGGT
Found at i:10451690 original size:7 final size:7
Alignment explanation
Indices: 10451678--10451703 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10451668 TATACATAAT
10451678 AATACTA
1 AATACTA
10451685 AATACTA
1 AATACTA
10451692 AATACTA
1 AATACTA
10451699 AATAC
1 AATAC
10451704 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:10452909 original size:22 final size:22
Alignment explanation
Indices: 10452881--10452950 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
10452871 TATGGATTTG
10452881 AGAGAATTTTGGAAGGAAATTA
1 AGAGAATTTTGGAAGGAAATTA
10452903 AGAGAATTTTGGAAGGAAATTA
1 AGAGAATTTTGGAAGGAAATTA
*
10452925 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTA
10452947 AGAG
1 AGAG
10452951 GAAATTGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTA
Found at i:10452953 original size:95 final size:96
Alignment explanation
Indices: 10452842--10453028 Score: 313
Period size: 95 Copynumber: 2.0 Consensus size: 96
10452832 TATTTTAAAA
*
10452842 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTCGGAAGGAAATTAAGAG
*
10452907 AATTTTGGAAGGAAATTAAGA-GAATTTTGG
66 AATTTTGGAAAGAAATTAAGAGGAATTTTGG
* * *
10452937 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTCGGAAGGAAATTGAGGG
1 AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTCGGAAGGAAATTAAGAG
*
10453002 AATTTTGGAAAGAAATTGAGAGGAATT
66 AATTTTGGAAAGAAATTAAGAGGAATT
10453029 GAGAGGAAAT
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 80 0.94
96 5 0.06
ACGTcount: A:0.44, C:0.01, G:0.28, T:0.27
Consensus pattern (96 bp):
AAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTCGGAAGGAAATTAAGAG
AATTTTGGAAAGAAATTAAGAGGAATTTTGG
Found at i:10452998 original size:22 final size:22
Alignment explanation
Indices: 10452973--10453028 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
10452963 AAATATGGAT
*
10452973 TTGAGAGAATTTCGGAAGGAAA
1 TTGAGAGAATTTCGGAAAGAAA
* *
10452995 TTGAGGGAATTTTGGAAAGAAA
1 TTGAGAGAATTTCGGAAAGAAA
10453017 TTGAGAGGAATT
1 TTGAGA-GAATT
10453029 GAGAGGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTCGGAAAGAAA
Found at i:10453045 original size:12 final size:11
Alignment explanation
Indices: 10453013--10453045 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
10453003 ATTTTGGAAA
10453013 GAAATTGAGAG
1 GAAATTGAGAG
10453024 G-AATTGAGAG
1 GAAATTGAGAG
10453034 GAAATATGAGAG
1 GAAAT-TGAGAG
10453046 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:10457171 original size:21 final size:21
Alignment explanation
Indices: 10457147--10457187 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10457137 CTTTTCATTC
*
10457147 AATTAATTATCGAAACTTTAG
1 AATTAATTAACGAAACTTTAG
**
10457168 AATTTCTTAACGAAACTTTA
1 AATTAATTAACGAAACTTTA
10457188 ATACTAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAG
Found at i:10459244 original size:17 final size:17
Alignment explanation
Indices: 10459217--10459257 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
10459207 GGTCCAAAAT
*
10459217 TTTTAACCTTTTTAATCC
1 TTTT-ACCTTTTTAATCA
10459235 TTTTACCTTTTTAATCA
1 TTTTACCTTTTTAATCA
10459252 TTTTAC
1 TTTTAC
10459258 TTCTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTACCTTTTTAATCA
Found at i:10465439 original size:5 final size:5
Alignment explanation
Indices: 10465422--10465453 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10465412 TGAGTTACTT
10465422 AATTA AA-TA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AATTA AAT
10465454 AGTATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:10473335 original size:20 final size:23
Alignment explanation
Indices: 10473296--10473337 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
10473286 TGATTTAATT
10473296 TATTAAATTTATTAAAATTTAAC
1 TATTAAATTTATTAAAATTTAAC
10473319 TATT-AATTT-TT-AAATTTAA
1 TATTAAATTTATTAAAATTTAA
10473338 TGTTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 5 0.26
23 4 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAAATTTATTAAAATTTAAC
Found at i:10476463 original size:28 final size:27
Alignment explanation
Indices: 10476423--10476499 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
10476413 CACGTGAAAA
* *
10476423 AAAAATAAAAAATTTTTAAATTTTAAT
1 AAAAATAAGAAATATTTAAATTTTAAT
* *
10476450 AAAATATAAGAAATATTTAATTTTTATT
1 AAAA-ATAAGAAATATTTAAATTTTAAT
*
10476478 AAAAATTAGAAAAATATTTAAA
1 AAAAA-TA-AGAAATATTTAAA
10476500 ATATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 5 0.12
28 25 0.61
29 11 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (27 bp):
AAAAATAAGAAATATTTAAATTTTAAT
Found at i:10476500 original size:9 final size:9
Alignment explanation
Indices: 10476488--10476540 Score: 88
Period size: 9 Copynumber: 5.8 Consensus size: 9
10476478 AAAAATTAGA
10476488 AAAATATTT
1 AAAATATTT
10476497 AAAATATTT
1 AAAATATTT
10476506 AAAATATTT
1 AAAATATTT
10476515 AAAATATTT
1 AAAATATTT
*
10476524 AAAATATAT
1 AAAATATTT
10476533 AGAAATAT
1 A-AAATAT
10476541 AGAAAAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
9 36 0.86
10 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:10476500 original size:18 final size:18
Alignment explanation
Indices: 10476486--10476550 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
10476476 TTAAAAATTA
10476486 GAAAAATATTTAAAATAT
1 GAAAAATATTTAAAATAT
**
10476504 TTAAAATATTTAAAATAT
1 GAAAAATATTTAAAATAT
** *
10476522 TTAAAATATATAGAAATAT
1 GAAAAATATTTA-AAATAT
10476541 AGAAAAATAT
1 -GAAAAATAT
10476551 ATATAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 27 0.68
19 6 0.15
20 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
GAAAAATATTTAAAATAT
Found at i:10476504 original size:27 final size:27
Alignment explanation
Indices: 10476474--10476550 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 27
10476464 ATTTAATTTT
10476474 TATTAAAAATTAGAAAAATATTTAAAA
1 TATTAAAAATTAGAAAAATATTTAAAA
*
10476501 TATTTAAAATATT--TAAAATATTTAAAA
1 TA-TTAAAA-ATTAGAAAAATATTTAAAA
*
10476528 TATATAGAAATATAGAAAAATAT
1 TAT-TAAAAAT-TAGAAAAATAT
10476551 ATATAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
26 3 0.07
27 22 0.54
28 6 0.15
29 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
TATTAAAAATTAGAAAAATATTTAAAA
Found at i:10476948 original size:27 final size:27
Alignment explanation
Indices: 10476859--10476957 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
10476849 ATTTTTTACG
* *
10476859 ATTTTTTTCTAACTTTTAGTAAATTTTA
1 ATTTTTTTATAACTTTTA-TTAATTTTA
* *
10476887 AGTTTTTGTAT-A-TTTTATTAAAGTTTA
1 A-TTTTTTTATAACTTTTATT-AATTTTA
* *
10476914 ATAATTTTTATAACTTTTATTGATTTTA
1 AT-TTTTTTATAACTTTTATTAATTTTA
*
10476942 A-TTTTTTATAATTTTT
1 ATTTTTTTATAACTTTT
10476958 TATCACATGT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
26 15 0.27
27 18 0.32
28 9 0.16
29 14 0.25
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (27 bp):
ATTTTTTTATAACTTTTATTAATTTTA
Found at i:10480756 original size:30 final size:31
Alignment explanation
Indices: 10480721--10480785 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
10480711 AATATATATT
10480721 TTTTATTTTTA-TTTTTTAATTTTAAAATAA
1 TTTTATTTTTATTTTTTTAATTTTAAAATAA
*
10480751 TTTTATTTTTATTTTTTTATTTTTAAAATAA
1 TTTTATTTTTATTTTTTTAATTTTAAAATAA
10480782 TTTT
1 TTTT
10480786 TTAATGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (31 bp):
TTTTATTTTTATTTTTTTAATTTTAAAATAA
Found at i:10487799 original size:52 final size:52
Alignment explanation
Indices: 10487705--10487808 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
10487695 ATATTTTTCT
*
10487705 TGGACCATTTGTACTCTTCATCCAATAATACGAAATCCCAGTCGTCCACTAA
1 TGGACCATTTGTACTCTTCATCCAATAACACGAAATCCCAGTCGTCCACTAA
* * * * * **
10487757 TGGATCATTTGTACTCTTTATTCGATAACACGACATTTCAGTCGTCCACTAA
1 TGGACCATTTGTACTCTTCATCCAATAACACGAAATCCCAGTCGTCCACTAA
10487809 CATCTAGGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
TGGACCATTTGTACTCTTCATCCAATAACACGAAATCCCAGTCGTCCACTAA
Found at i:10492404 original size:11 final size:11
Alignment explanation
Indices: 10492333--10492418 Score: 61
Period size: 11 Copynumber: 7.6 Consensus size: 11
10492323 CACTTTCACT
*
10492333 TTTTCTCTTTTT
1 TTTT-TCTTTTC
10492345 TTTTTCTATTT-
1 TTTTTCT-TTTC
*
10492356 TTTTTCAATTTC
1 TTTTTC-TTTTC
*
10492368 TTTTTCTCATTC
1 TTTTTCT-TTTC
*
10492380 -TTTGCTTTTGC
1 TTTTTCTTTT-C
10492391 TTTTTCTTTTC
1 TTTTTCTTTTC
*
10492402 TTTTTC-ATTC
1 TTTTTCTTTTC
10492412 TTTTTCT
1 TTTTTCT
10492419 CTTGTTTGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
10 11 0.18
11 25 0.42
12 24 0.40
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:10492418 original size:6 final size:6
Alignment explanation
Indices: 10492331--10492407 Score: 52
Period size: 6 Copynumber: 13.2 Consensus size: 6
10492321 TTCACTTTCA
* * ** **
10492331 CTTTTT CTCTTTT TTTTTT CTATTT -TTTTT CAATTT CTTTTT CTCATT
1 CTTTTT CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
* *
10492379 C-TTTG CTTTTG CTTTTT C-TTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
10492408 ATTCTTTTTC
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
5 11 0.21
6 37 0.70
7 5 0.09
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (6 bp):
CTTTTT
Found at i:10501746 original size:25 final size:27
Alignment explanation
Indices: 10501676--10501748 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 27
10501666 ATCTCAATTT
*
10501676 TTTTTAAAAATAAAAAAAAAACAATAGAA
1 TTTTTAAAAA-AAAATAAAAACAATA-AA
* **
10501705 TTTTTCAAAAATTATAAAAAC-AT-AA
1 TTTTTAAAAAAAAATAAAAACAATAAA
*
10501730 TTTTTAAAAAAACATAAAA
1 TTTTTAAAAAAAAATAAAA
10501749 TTCAAAAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 18 0.49
27 2 0.05
28 8 0.22
29 9 0.24
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (27 bp):
TTTTTAAAAAAAAATAAAAACAATAAA
Found at i:10507646 original size:20 final size:20
Alignment explanation
Indices: 10507621--10507660 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10507611 CGTAAAATAA
* *
10507621 TTTCTGGGAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
10507641 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10507661 GAAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10507737 original size:32 final size:33
Alignment explanation
Indices: 10507663--10507737 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
10507653 GATTTACTGA
* **
10507663 AAAATATTTTCTGGTGTTTGATTGAATCTGTGT
1 AAAATATTTTCTGCTGTTTGACAGAATCTGTGT
*
10507696 AAAATATTTTCTGCTGTTTGACAGATTTCT-TG-
1 AAAATATTTTCTGCTGTTTGACAGA-ATCTGTGT
10507728 AAAATATTTT
1 AAAATATTTT
10507738 TCGGAAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 10 0.27
33 24 0.65
34 3 0.08
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (33 bp):
AAAATATTTTCTGCTGTTTGACAGAATCTGTGT
Found at i:10508380 original size:111 final size:111
Alignment explanation
Indices: 10508186--10508407 Score: 435
Period size: 111 Copynumber: 2.0 Consensus size: 111
10508176 AGATGAAGTA
*
10508186 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATATCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
10508251 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
10508297 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
10508362 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
10508408 CTTCGTATTG
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (111 bp):
TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
Found at i:10511989 original size:22 final size:22
Alignment explanation
Indices: 10511963--10512007 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10511953 CCAATATGTG
10511963 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
10511985 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
10512007 T
1 T
10512008 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:10515766 original size:22 final size:22
Alignment explanation
Indices: 10515738--10515782 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10515728 AGGGGGAGTG
10515738 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
10515760 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
10515782 T
1 T
10515783 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:10517115 original size:26 final size:26
Alignment explanation
Indices: 10517066--10517115 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10517056 ATAAAAACCT
* *
10517066 AGAAAAGAAGCTAACTAACCTCCAAA
1 AGAAAAGAAGCTAACAAACATCCAAA
10517092 AGAAAAGAAGCTAGA-AAACATCCA
1 AGAAAAGAAGCTA-ACAAACATCCA
10517116 TTGGGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.56, C:0.20, G:0.14, T:0.10
Consensus pattern (26 bp):
AGAAAAGAAGCTAACAAACATCCAAA
Found at i:10517594 original size:16 final size:16
Alignment explanation
Indices: 10517572--10517640 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
10517562 TTTGGTTCGC
10517572 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
10517588 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10517604 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
10517621 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10517637 TGTA
1 TGTA
10517641 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:10517618 original size:33 final size:32
Alignment explanation
Indices: 10517572--10517640 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
10517562 TTTGGTTCGC
10517572 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
10517604 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
10517637 TGTA
1 TGTA
10517641 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:10517705 original size:44 final size:45
Alignment explanation
Indices: 10517621--10517711 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
10517611 GGATTAGAGG
* * *
10517621 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
10517666 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
10517710 TG
1 TG
10517712 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:10517897 original size:18 final size:17
Alignment explanation
Indices: 10517876--10517910 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10517866 TTATTATTAA
*
10517876 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10517894 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10517911 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10522498 original size:90 final size:91
Alignment explanation
Indices: 10522345--10522514 Score: 333
Period size: 90 Copynumber: 1.9 Consensus size: 91
10522335 AAACATGCTC
10522345 TTAGGGATTTCACGGGGGAAATTTTTGGTAAAATGGCACGATTTCTCAAAATAAAATGATTTTTA
1 TTAGGGATTTCACGGGGGAAATTTTTGGTAAAATGGCACGATTTCTCAAAATAAAATGATTTTTA
10522410 CGGCG-TTTTTATAAGCCATGGAAGA
66 CGGCGTTTTTTATAAGCCATGGAAGA
10522435 TTAGGGATTTCACGGGGGAAATTTTTGGTAAAATGGCACGATTTCTCAAAATAAAATGATTTTTA
1 TTAGGGATTTCACGGGGGAAATTTTTGGTAAAATGGCACGATTTCTCAAAATAAAATGATTTTTA
10522500 CGGCGTTTTTTATAA
66 CGGCGTTTTTTATAA
10522515 AAACGCCGTT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 70 0.89
91 9 0.11
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (91 bp):
TTAGGGATTTCACGGGGGAAATTTTTGGTAAAATGGCACGATTTCTCAAAATAAAATGATTTTTA
CGGCGTTTTTTATAAGCCATGGAAGA
Found at i:10523992 original size:41 final size:41
Alignment explanation
Indices: 10523935--10524136 Score: 253
Period size: 41 Copynumber: 4.9 Consensus size: 41
10523925 TAAATCCCGG
* * **
10523935 GCATTAGTGGTGCTTTTTAAAAAACGCCGCTAAAGCCCTAA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAA
* * *
10523976 GCATTAGCGGCGCTTTTCCAAAAACACCGCTAAATCCCTTA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAA
* *
10524017 GCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGCCCTGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAA
* * * *
10524058 GCATTAGCGGCACTTTTTCAGAAACGCCGCTAAAGACC-AGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTA-A
* *
10524099 GCATTAGCGGTGCTTTTCCAAAAACGCTGCTAAAGCCC
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC
10524137 CGAAAGGTAA
Statistics
Matches: 137, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAA
Found at i:10524051 original size:82 final size:81
Alignment explanation
Indices: 10523901--10524136 Score: 301
Period size: 82 Copynumber: 2.9 Consensus size: 81
10523891 AAATGTTTTT
** * * **
10523901 GCGGCGCTTTTTCAAAAACATTGCTAAATCCCGGGCATTAGTGGTGCTTTTTAAAAAACGCCGCT
1 GCGGCGCTTTTTCAAAAACACCGCTAAATCCCGAGCATTAGCGGTGCTTTTCCAAAAACGCCGCT
10523966 AAAGCCCTAAGCATTA
66 AAAGCCCTAAGCATTA
* * **
10523982 GCGGCGCTTTTCCAAAAACACCGCTAAATCCCTTAGCATTAGCGACGCTTTTCCAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACACCGCTAAATCCC-GAGCATTAGCGGTGCTTTTCCAAAAACGCCGC
*
10524047 TAAAGCCCTGAGCATTA
65 TAAAGCCCTAAGCATTA
* * * * * *
10524064 GCGGCACTTTTTCAGAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTCCAAAAACGCTGC
1 GCGGCGCTTTTTCAAAAACACCGCTAAA-TCCCGAGCATTAGCGGTGCTTTTCCAAAAACGCCGC
10524129 TAAAGCCC
65 TAAAGCCC
10524137 CGAAAGGTAA
Statistics
Matches: 132, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 29 0.22
82 101 0.77
83 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (81 bp):
GCGGCGCTTTTTCAAAAACACCGCTAAATCCCGAGCATTAGCGGTGCTTTTCCAAAAACGCCGCT
AAAGCCCTAAGCATTA
Found at i:10524243 original size:39 final size:39
Alignment explanation
Indices: 10524200--10524304 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 39
10524190 AAAAATGCCT
*
10524200 CTAATGCTCATTTTTAACGGCGCTTTCGT-TAAAGCGCCG
1 CTAATGCTCATTTTTAACGGCG-TTTCATGTAAAGCGCCG
* * *
10524239 CTAATGCTCAATCTTTAGCGGCGTTTTATGTAAAGCGCCG
1 CTAATGCTC-ATTTTTAACGGCGTTTCATGTAAAGCGCCG
* * *
10524279 CTAATGCTTGATTTTTAGCCGCGTTT
1 CTAATGC-TCATTTTTAACGGCGTTT
10524305 TTTATTCAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 13 0.23
40 42 0.75
41 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (39 bp):
CTAATGCTCATTTTTAACGGCGTTTCATGTAAAGCGCCG
Found at i:10524273 original size:40 final size:40
Alignment explanation
Indices: 10524229--10524305 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
10524219 GCGCTTTCGT
*
10524229 TAAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTATG
1 TAAAGCGCCGCTAATGCTCAATCTTTAGCCGCGTTTTATG
** *
10524269 TAAAGCGCCGCTAATGCTTGATTTTTAGCCGCGTTTT
1 TAAAGCGCCGCTAATGCTCAATCTTTAGCCGCGTTTT
10524306 TTATTCAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (40 bp):
TAAAGCGCCGCTAATGCTCAATCTTTAGCCGCGTTTTATG
Found at i:10526888 original size:5 final size:5
Alignment explanation
Indices: 10526878--10526951 Score: 69
Period size: 6 Copynumber: 13.6 Consensus size: 5
10526868 ACAACTTTTT
*
10526878 TTTCA TTTCA -TTCA TTTCCA TTTCCA TTTCCG TTTCTA TTTCA TTTCA
1 TTTCA TTTCA TTTCA TTT-CA TTT-CA TTT-CA TTTC-A TTTCA TTTCA
10526926 TTTACA TTTACA TTTCCA TTTCA TTT
1 TTT-CA TTT-CA TTT-CA TTTCA TTT
10526952 AAATTATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.06
5 22 0.35
6 36 0.58
ACGTcount: A:0.19, C:0.23, G:0.01, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:10526907 original size:12 final size:11
Alignment explanation
Indices: 10526878--10526951 Score: 82
Period size: 12 Copynumber: 6.7 Consensus size: 11
10526868 ACAACTTTTT
10526878 TTTCATTT-CA
1 TTTCATTTCCA
10526888 -TTCATTTCCA
1 TTTCATTTCCA
*
10526898 TTTCCATTTCCG
1 TTT-CATTTCCA
10526910 TTTCTATTT-CA
1 TTTC-ATTTCCA
*
10526921 TTTCATTTACA
1 TTTCATTTCCA
10526932 TTTACATTTCCA
1 TTT-CATTTCCA
10526944 TTTCATTT
1 TTTCATTT
10526952 AAATTATTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
9 7 0.13
10 6 0.11
11 18 0.33
12 24 0.44
ACGTcount: A:0.19, C:0.23, G:0.01, T:0.57
Consensus pattern (11 bp):
TTTCATTTCCA
Found at i:10526933 original size:28 final size:29
Alignment explanation
Indices: 10526881--10526951 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
10526871 ACTTTTTTTT
* *
10526881 CATTT-CA-TTCATTTCCATTTCCATTTC
1 CATTTCCATTTCATTTCCATTTACATTTA
* *
10526908 CGTTTCTATTTCATTT-CATTTACATTTA
1 CATTTCCATTTCATTTCCATTTACATTTA
10526936 CATTTCCATTTCATTT
1 CATTTCCATTTCATTT
10526952 AAATTATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.11
28 25 0.69
29 7 0.19
ACGTcount: A:0.20, C:0.24, G:0.01, T:0.55
Consensus pattern (29 bp):
CATTTCCATTTCATTTCCATTTACATTTA
Found at i:10526986 original size:20 final size:20
Alignment explanation
Indices: 10526943--10526992 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
10526933 TTACATTTCC
10526943 ATTT-CATTTAAATTATTTT
1 ATTTCCATTTAAATTATTTT
*
10526962 TTTTCCATTTAAATT-TATTT
1 ATTTCCATTTAAATTAT-TTT
10526982 ATTTCTCATTT
1 ATTTC-CATTT
10526993 CATTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 17 0.65
21 5 0.19
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTCCATTTAAATTATTTT
Found at i:10526991 original size:21 final size:19
Alignment explanation
Indices: 10526946--10526992 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
10526936 CATTTCCATT
*
10526946 TCATTTAAATTATTTTTTT
1 TCATTTAAATTATTTTTTC
10526965 TCCATTTAAATTTATTTATTTC
1 T-CATTTAAA-TTATTT-TTTC
10526987 TCATTT
1 TCATTT
10526993 CATTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.33
21 11 0.46
22 4 0.17
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (19 bp):
TCATTTAAATTATTTTTTC
Found at i:10527004 original size:14 final size:15
Alignment explanation
Indices: 10526974--10527014 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
10526964 TTCCATTTAA
10526974 ATTT-ATTTATTTCTC
1 ATTTCATTT-TTTCTC
10526989 ATTTCATTTTTT-TC
1 ATTTCATTTTTTCTC
10527003 ATTTCAGTTTTT
1 ATTTCA-TTTTT
10527015 GTTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.33
15 12 0.50
16 4 0.17
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.68
Consensus pattern (15 bp):
ATTTCATTTTTTCTC
Found at i:10527111 original size:19 final size:19
Alignment explanation
Indices: 10527060--10527111 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
10527050 ACTTTCATTC
*
10527060 CATTTCATAATAATAATTT
1 CATTTCATAATCATAATTT
*
10527079 CATTTCATAATCATAGTTT
1 CATTTCATAATCATAATTT
*
10527098 CATTTCATATTCAT
1 CATTTCATAATCAT
10527112 TTAACATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (19 bp):
CATTTCATAATCATAATTT
Found at i:10527128 original size:23 final size:23
Alignment explanation
Indices: 10527095--10527179 Score: 98
Period size: 23 Copynumber: 3.5 Consensus size: 23
10527085 ATAATCATAG
10527095 TTTCATTTCATATTCATTTAACA
1 TTTCATTTCATATTCATTTAACA
* * *
10527118 TTTTATTTCATATTAATTACAAATTACA
1 TTTCATTTCATATTCATT-----TAACA
10527146 TTTCATTTCATATTCATTTAACA
1 TTTCATTTCATATTCATTTAACA
10527169 TTTCATTTCAT
1 TTTCATTTCAT
10527180 TAATTTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 31 0.61
28 20 0.39
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTCATTTCATATTCATTTAACA
Found at i:10527206 original size:19 final size:18
Alignment explanation
Indices: 10527169--10527207 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10527159 TCATTTAACA
*
10527169 TTTCATTTCATTAATTTT
1 TTTCATTTAATTAATTTT
*
10527187 TTTCATTTAAATTTATTTT
1 TTTCATTT-AATTAATTTT
10527206 TT
1 TT
10527208 CCTAATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCATTTAATTAATTTT
Found at i:10527635 original size:22 final size:21
Alignment explanation
Indices: 10527603--10527705 Score: 106
Period size: 22 Copynumber: 4.9 Consensus size: 21
10527593 TGTTTTATTT
10527603 ATTT-ATTTCATTTCTATTTCC
1 ATTTCATTTCATTTC-ATTTCC
*
10527624 ATTTCATTTCATTTC--TTAC
1 ATTTCATTTCATTTCATTTCC
* *
10527643 ATTTCATTTAATTTGTATTTCC
1 ATTTCATTTCATTT-CATTTCC
*
10527665 ATTTCATTTTATTTCATTT-C
1 ATTTCATTTCATTTCATTTCC
10527685 ATTTTCATATTCATTTCATTT
1 A-TTTCAT-TTCATTTCATTT
10527706 AAATTATTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.23
20 2 0.03
21 14 0.20
22 37 0.54
ACGTcount: A:0.21, C:0.17, G:0.01, T:0.61
Consensus pattern (21 bp):
ATTTCATTTCATTTCATTTCC
Found at i:10527663 original size:41 final size:41
Alignment explanation
Indices: 10527603--10527688 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
10527593 TGTTTTATTT
*
10527603 ATTTATTTCATTTCTATTTCCATTTCATTTCATTTC-TTAC
1 ATTTATTTAATTTCTATTTCCATTTCATTTCATTTCATTAC
* * *
10527643 ATTTCATTTAATTTGTATTTCCATTTCATTTTATTTCATTTC
1 ATTT-ATTTAATTTCTATTTCCATTTCATTTCATTTCATTAC
10527685 ATTT
1 ATTT
10527689 TCATATTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 4 0.10
41 29 0.73
42 7 0.17
ACGTcount: A:0.21, C:0.16, G:0.01, T:0.62
Consensus pattern (41 bp):
ATTTATTTAATTTCTATTTCCATTTCATTTCATTTCATTAC
Found at i:10527668 original size:6 final size:5
Alignment explanation
Indices: 10527599--10527925 Score: 118
Period size: 5 Copynumber: 61.6 Consensus size: 5
10527589 CCTTTGTTTT
*
10527599 ATTT- ATTT- ATTTC ATTTC TATTTCC ATTTC ATTTC ATTTC -TTAC ATTTC
1 ATTTC ATTTC ATTTC ATTTC -ATTT-C ATTTC ATTTC ATTTC ATTTC ATTTC
* * *
10527648 ATTTA ATTTGT ATTTCC ATTTC ATTTT ATTTC ATTTC ATTTTC ATATTC
1 ATTTC ATTT-C ATTT-C ATTTC ATTTC ATTTC ATTTC A-TTTC AT-TTC
* * * * * *
10527697 ATTTC ATTTA AATT- ATTT- TTTTC TATTTAA ATTT- AATTC TTTCTC
1 ATTTC ATTTC ATTTC ATTTC ATTTC -ATTT-C ATTTC ATTTC ATT-TC
* * * *
10527742 ATTTTC AATTT- -TTTT TTTTC ATTTC AGTTTTT GTCTTC ATTTC AATTT-
1 A-TTTC -ATTTC ATTTC ATTTC ATTTC A--TTTC AT-TTC ATTTC -ATTTC
* * * * *
10527790 ATAATTT ATTTTC ATTTAA ACTTTC ATTCC ATTTC ATAATC A--TA ATTTC
1 AT--TTC A-TTTC ATTT-C A-TTTC ATTTC ATTTC AT-TTC ATTTC ATTTC
* *
10527839 ATTTC ATATTC ATTTAAC ATTTC ATTTC ATTTC ATATTC ATTATAA ATTAC
1 ATTTC AT-TTC ATTT--C ATTTC ATTTC ATTTC AT-TTC ATT-T-C ATTTC
10527890 ATTTC ATTTC ATATTC ATTTAAC ATTTC ATTTC ATT
1 ATTTC ATTTC AT-TTC ATTT--C ATTTC ATTTC ATT
10527926 AATTTTTTTT
Statistics
Matches: 249, Mismatches: 36, Indels: 75
0.69 0.10 0.21
Matches are distributed among these distances:
3 5 0.02
4 22 0.09
5 124 0.50
6 73 0.29
7 24 0.10
8 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.01, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:10527715 original size:41 final size:40
Alignment explanation
Indices: 10527670--10527806 Score: 98
Period size: 41 Copynumber: 3.2 Consensus size: 40
10527660 TTTCCATTTC
10527670 ATTTTATTTCATTTCATTTTCATATTCATTTCATTTAAATT
1 ATTTTATTTCATTTCATTTT-ATATTCATTTCATTTAAATT
* * * *
10527711 ATTTT-TTTCTATTTAAATTTA-ATTCTTTCTCATTTTCAATT
1 ATTTTATTTC-ATTTCATTTTATATTCATT-TCA-TTTAAATT
* * * *
10527752 TTTTTTTTTCATTTCAGTTTTTGTCTTCATTTCAATTTATAATTT
1 ATTTTATTTCATTTCA--TTTTATATTCATTTC-ATTTA-AA-TT
10527797 ATTTTCATTT
1 ATTTT-ATTT
10527807 AAACTTTCAT
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
39 6 0.08
40 8 0.11
41 29 0.40
42 4 0.06
43 8 0.11
44 8 0.11
45 6 0.08
46 3 0.04
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.64
Consensus pattern (40 bp):
ATTTTATTTCATTTCATTTTATATTCATTTCATTTAAATT
Found at i:10527716 original size:27 final size:26
Alignment explanation
Indices: 10527599--10527716 Score: 73
Period size: 27 Copynumber: 4.4 Consensus size: 26
10527589 CCTTTGTTTT
*
10527599 ATTTATTTATTTCATTTCTATTTCCATTTC
1 ATTTA-TT-TTTCATTTC-ATTT-CATTTA
*
10527629 ATTTCA--TTTC-TTACATTTCATTTA
1 ATTT-ATTTTTCATTTCATTTCATTTA
* * * *
10527653 ATTTGTATTTCCATTTCATTTTATTTC
1 ATTTAT-TTTTCATTTCATTTCATTTA
10527680 ATTTCA-TTTTCATATTCATTTCATTTA
1 ATTT-ATTTTTCAT-TTCATTTCATTTA
*
10527707 AATTATTTTT
1 ATTTATTTTT
10527717 TTCTATTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
24 9 0.13
25 4 0.06
26 13 0.19
27 37 0.54
30 4 0.06
31 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.01, T:0.62
Consensus pattern (26 bp):
ATTTATTTTTCATTTCATTTCATTTA
Found at i:10527867 original size:28 final size:28
Alignment explanation
Indices: 10527834--10527925 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
10527824 CATAATCATA
10527834 ATTTCATTTCATATTCATTTAACATTTC
1 ATTTCATTTCATATTCATTTAACATTTC
*
10527862 ATTTCATTTCATATTCATTATAA-ATTAC
1 ATTTCATTTCATATTCATT-TAACATTTC
10527890 ATTTCATTTCATATTCATTTAACATTTC
1 ATTTCATTTCATATTCATTTAACATTTC
10527918 ATTTCATT
1 ATTTCATT
10527926 AATTTTTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
27 3 0.05
28 54 0.90
29 3 0.05
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTTCATTTCATATTCATTTAACATTTC
Found at i:10527893 original size:23 final size:24
Alignment explanation
Indices: 10527866--10527926 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
10527856 CATTTCATTT
10527866 CATTTCATATTCATTA-TAAATT-A
1 CATTTCAT-TTCATTATTAAATTAA
* *
10527889 CATTTCATTTCA-TATTCATTTAA
1 CATTTCATTTCATTATTAAATTAA
10527912 CATTTCATTTCATTA
1 CATTTCATTTCATTA
10527927 ATTTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 2 0.06
22 8 0.24
23 21 0.64
24 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (24 bp):
CATTTCATTTCATTATTAAATTAA
Found at i:10528020 original size:15 final size:15
Alignment explanation
Indices: 10528000--10528039 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10527990 AGTAGTCTCA
*
10528000 TTTCAATTTATCTTT
1 TTTCAATTCATCTTT
*
10528015 TTTCAATTCATTTTT
1 TTTCAATTCATCTTT
10528030 TTTCAATTCA
1 TTTCAATTCA
10528040 ATTCATATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCAATTCATCTTT
Found at i:10528056 original size:22 final size:21
Alignment explanation
Indices: 10528016--10528064 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
10528006 TTTATCTTTT
*
10528016 TTCAATTCATTTTTTTTCA-A
1 TTCAATTCATTCTTTTTCATA
10528036 TTCAATTCATATGCTTTTTCATA
1 TTCAATTCAT-T-CTTTTTCATA
10528059 TT-AATT
1 TTCAATT
10528065 AGAAGTAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 11 0.44
23 3 0.12
ACGTcount: A:0.27, C:0.14, G:0.02, T:0.57
Consensus pattern (21 bp):
TTCAATTCATTCTTTTTCATA
Found at i:10528065 original size:750 final size:723
Alignment explanation
Indices: 10526903--10528480 Score: 2098
Period size: 750 Copynumber: 2.1 Consensus size: 723
10526893 TTCCATTTCC
*
10526903 ATTTCCGTTTCTATTTCATTTCATTTACATTTACAT-TTCCATTTCATTTAAATTATTTTTTTTC
1 ATTTCCATTTC-ATTTCATTTCATTTACATTTACATATTCCATTTCATTTAAATTA-TTTTTTTC
* * *
10526967 CATTTAAATTTATTTATTTCTCA-TTTCATTTTTTTCATTTCAGTTTTTGTTTTTATTTCAATTT
64 CATTTAAATTTAATTATTTCTCATTTTCATTTTTTTCATTTCAGTTTTTGTCTTCATTTCAATTT
*
10527031 ATAATTTATTTTTATTTAAACTTTCATTCCATTTCATAATAATAATTTCATTTCATAATCATAGT
129 ATAATTTATTTTCATTTAAACTTTCATTCCATTTCATAATAATAATTTCA-TT-AT-ATCATAG-
*
10527096 TTCATTTCATATTCATTTAACATTTTATTTCATATTAATTACAAATTACATTTCATTTCATATTC
190 TTCATTTCATA-TCATTT-ACATTTCATTTCATATTAATTACAAATTACATTTCATTTCATATTC
10527161 ATTTAACATTTCATTTCATTAATTTTTTTCATTTAAATTTATTTTTTCCTAATATACAAAAAAAA
253 ATTTAACATTTCATTTCATTAATTTTTTTCATTTAAATTTATTTTTTCCTAATATACAAAAAAAA
*
10527226 TCATATTAATCACAAGTAATCTCATTTGAAGTTATCTTTTTTCAATTCAATTTTTTTTTCAATTC
318 TCATATTAATCACAAGTAATCTCATTTCAAGTTATCTTTTTTCAATTCAATTTTTTTTTCAATTC
* * *
10527291 AGTTCATATTTTTTCATATTAATTAGAAGTAGTCTCAATATCAGGGTCATTTAAAGTTTTTTATA
383 AATTCATATTTTTTCATATTAATTAGAAGTAGTCTCAATATCAGGGTCATTTAAAATTTTTCATA
*
10527356 TTTTATTTAAATTTATTCTCAACTTAAATATCATTCCATTACAAAATTTTAAATTTCATTTAAA-
448 TTTTATTTAAATTTATTCTCAACTTAAATATCATTCAATTACAAAATTTTAAATTTCATTTAAAT
* *
10527420 TTCAAACAATTTCTCATTTCATTTTTTTGGGATTTTTTTTAGTTTTTTTTTTGGCCTAAAATGTT
513 TTCAAAAAAATTCTCATTTCATTTTTTTGGG---TTTTTTA-----------GGCCTAAAATGTT
* * * *
10527485 GGGTCAAATCCTAGGCACTAGGCCTACTGGTGCC-GACCATTGAT-TGTCCATTTGCCAGGCCTG
564 GGGTCAAATCCTAAGCACTAGGCCTACTGGTACCAG-CCACTGATAT-TCCATTTCCCAGGCCTG
* *
10527548 CCGCAGGT-TTGACGCAGGCCTGGTCTAACATGTCCTTTCATCCTT-TGTTTTATTTATTTATTT
627 ACGCA-GTCTT------GG-C----CTAACATGTCCTTTCAT-CTTCT-TTTT-TTT-TTCATTT
10527611 CATTTCTATTTCCATTTCATTTCATTTCTTACATTTCATTTAATTTGT
676 CATTTCTATTTCCATTTCATTTCATTTCTTACATTTCATTTAATTTGT
* * *
10527659 ATTTCCATTTCATTTTATTTCATTT-CATTTTCATATT-CATTTCATTTAAATTATTTTTTTCTA
1 ATTTCCATTTCATTTCATTTCATTTACATTTACATATTCCATTTCATTTAAATTATTTTTTTCCA
*
10527722 TTTAAATTTAATTCTTTCTCATTTTCAATTTTTTTTTTTCATTTCAGTTTTTGTCTTCATTTCAA
66 TTTAAATTTAATTATTTCTCATTTTC-A----TTTTTTTCATTTCAGTTTTTGTCTTCATTTCAA
*
10527787 TTTATAATTTATTTTCATTTAAACTTTCATTCCATTTCATAATCATAATTTCA-T-T-TCATA-T
126 TTTATAATTTATTTTCATTTAAACTTTCATTCCATTTCATAATAATAATTTCATTATATCATAGT
* *
10527848 TCATTT-A-A-CATTT-CATTTCATTTCATATTCATTATAAATTACATTTCATTTCATATTCATT
191 TCATTTCATATCATTTACATTTCATTTCATATTAATTACAAATTACATTTCATTTCATATTCATT
10527909 TAACATTTCATTTCATTAATTTTTTTTTCATTTAAATTTATATTTTTCCTAATATACAAAAAAAG
256 TAACATTTCATTTCATTAA--TTTTTTTCATTTAAATTTAT-TTTTTCCTAATATACAAAAAAA-
* * *
10527974 TTTCATATTAATCACAAGTAGTCTCATTTCAATTTATCTTTTTTCAATTC-A-TTTTTTTTCAAT
317 -ATCATATTAATCACAAGTAATCTCATTTCAAGTTATCTTTTTTCAATTCAATTTTTTTTTCAAT
10528037 TCAATTCATATGCTTTTTCATATTAATTAGAAGTAGTCTCAATATCAGGGTCATTTAAAATTTTT
381 TCAATTCATAT--TTTTTCATATTAATTAGAAGTAGTCTCAATATCAGGGTCATTTAAAATTTTT
* * *
10528102 CATATTTTATTTAAATTTTTTCTCAATTTAAATATCATTCAATTACAAAATTTTTAATTTCATTT
444 CATATTTTATTTAAATTTATTCTCAACTTAAATATCATTCAATTACAAAATTTTAAATTTCATTT
* * * *
10528167 AAATTTTAAAAAAATTCTCATTTCATTTTTTTGGGTTTTTTAGGCTTGAAATGTTGGGTCAAATT
509 AAATTTCAAAAAAATTCTCATTTCATTTTTTTGGGTTTTTTAGGCCTAAAATGTTGGGTCAAATC
* *
10528232 GTAAGCACTAGGCCTGCTGGTACCAGCCACTGATATTCCATTTCCCAGGCCTGACGCAGTCTTGG
574 CTAAGCACTAGGCCTACTGGTACCAGCCACTGATATTCCATTTCCCAGGCCTGACGCAGTCTTGG
* *
10528297 CCTAACATGTCCTTTTATCTTCTTTTTTTTTTCATTTCATTTCTATTTCTATTTCATTTCATTTC
639 CCTAACATGTCCTTTCATCTTCTTTTTTTTTTCATTTCATTTCTATTTCCATTTCATTTCATTTC
* *
10528362 TTCCATTTCATTTCATTTGT
704 TTACATTTCATTTAATTTGT
* *
10528382 ATTTCCATTTCATTTCATTTCATTTCCATTTCCATTTCCATTTCCATTTCATTTAAATTATTTTT
1 ATTTCCATTTCATTTCATTTCATTTACATTTACA--T--A-TTCCATTTCATTTAAATTATTTTT
*
10528447 TTCCATTTAAATTTAATTTTTTCTCATTTT-ATTT
61 TTCCATTTAAATTTAATTATTTCTCATTTTCATTT
10528481 AAATTATCTA
Statistics
Matches: 750, Mismatches: 46, Indels: 84
0.85 0.05 0.10
Matches are distributed among these distances:
723 75 0.10
724 13 0.02
725 7 0.01
726 18 0.02
728 2 0.00
729 2 0.00
730 50 0.07
731 2 0.00
736 2 0.00
737 69 0.09
738 2 0.00
745 64 0.09
747 25 0.03
748 51 0.07
749 2 0.00
750 160 0.21
751 35 0.05
753 33 0.04
754 28 0.04
755 17 0.02
756 10 0.01
757 1 0.00
759 82 0.11
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.52
Consensus pattern (723 bp):
ATTTCCATTTCATTTCATTTCATTTACATTTACATATTCCATTTCATTTAAATTATTTTTTTCCA
TTTAAATTTAATTATTTCTCATTTTCATTTTTTTCATTTCAGTTTTTGTCTTCATTTCAATTTAT
AATTTATTTTCATTTAAACTTTCATTCCATTTCATAATAATAATTTCATTATATCATAGTTCATT
TCATATCATTTACATTTCATTTCATATTAATTACAAATTACATTTCATTTCATATTCATTTAACA
TTTCATTTCATTAATTTTTTTCATTTAAATTTATTTTTTCCTAATATACAAAAAAAATCATATTA
ATCACAAGTAATCTCATTTCAAGTTATCTTTTTTCAATTCAATTTTTTTTTCAATTCAATTCATA
TTTTTTCATATTAATTAGAAGTAGTCTCAATATCAGGGTCATTTAAAATTTTTCATATTTTATTT
AAATTTATTCTCAACTTAAATATCATTCAATTACAAAATTTTAAATTTCATTTAAATTTCAAAAA
AATTCTCATTTCATTTTTTTGGGTTTTTTAGGCCTAAAATGTTGGGTCAAATCCTAAGCACTAGG
CCTACTGGTACCAGCCACTGATATTCCATTTCCCAGGCCTGACGCAGTCTTGGCCTAACATGTCC
TTTCATCTTCTTTTTTTTTTCATTTCATTTCTATTTCCATTTCATTTCATTTCTTACATTTCATT
TAATTTGT
Found at i:10528131 original size:21 final size:21
Alignment explanation
Indices: 10528089--10528131 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10528079 TATCAGGGTC
*
10528089 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
10528110 ATTTAAATTTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
10528131 A
1 A
10528132 AATATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:10528344 original size:6 final size:5
Alignment explanation
Indices: 10528326--10528435 Score: 123
Period size: 5 Copynumber: 20.6 Consensus size: 5
10528316 TTCTTTTTTT
*
10528326 TTTCA TTTCA TTTCTA TTTCTA TTTCA TTTCA TTTC- TTCCA TTTCA TTTCA
1 TTTCA TTTCA TTTC-A TTTC-A TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
*
10528377 TTTGTA TTTCCA TTTCA TTTCA TTTCA TTTCCA TTTCCA TTTCCA TTTCCA
1 TTT-CA TTT-CA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTT-CA TTT-CA
10528428 TTTCA TTT
1 TTTCA TTT
10528436 AAATTATTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
4 3 0.03
5 51 0.53
6 42 0.44
ACGTcount: A:0.17, C:0.23, G:0.01, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:10528351 original size:22 final size:21
Alignment explanation
Indices: 10528326--10528435 Score: 136
Period size: 22 Copynumber: 5.1 Consensus size: 21
10528316 TTCTTTTTTT
*
10528326 TTTCATTTCATTTCTATTTCTA
1 TTTCATTTCATTTC-ATTTCCA
10528348 TTTCATTTCATTTC--TTCCA
1 TTTCATTTCATTTCATTTCCA
*
10528367 TTTCATTTCATTTGTATTTCCA
1 TTTCATTTCATTT-CATTTCCA
10528389 TTTCATTTCATTTCATTTCCA
1 TTTCATTTCATTTCATTTCCA
10528410 TTTCCATTTCCATTTCCATTT-CA
1 TTT-CATTT-CATTT-CATTTCCA
10528433 TTT
1 TTT
10528436 AAATTATTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
19 17 0.22
21 10 0.13
22 37 0.47
23 10 0.13
24 5 0.06
ACGTcount: A:0.17, C:0.23, G:0.01, T:0.59
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCCA
Found at i:10528455 original size:19 final size:21
Alignment explanation
Indices: 10528430--10528475 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
10528420 CATTTCCATT
*
10528430 TCATTTAAA-TTATTTTTTTC
1 TCATTTAAATTTAATTTTTTC
10528450 -CATTTAAATTTAATTTTTTC
1 TCATTTAAATTTAATTTTTTC
10528470 TCATTT
1 TCATTT
10528476 TATTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 10 0.43
21 5 0.22
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (21 bp):
TCATTTAAATTTAATTTTTTC
Found at i:10528482 original size:26 final size:26
Alignment explanation
Indices: 10528451--10528541 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
10528441 ATTTTTTTCC
10528451 ATTTAAATTTAATTTTTTCTCATTTT
1 ATTTAAATTTAATTTTTTCTCATTTT
* ** * *
10528477 ATTTAAATTATCTACCTTTCCATTCATTTC
1 ATTTAAATT-T-AATTTTTTC--TCATTTT
*
10528507 ATTTAAATTTATTTTTTTCTC-TTTT
1 ATTTAAATTTAATTTTTTCTCATTTT
10528532 CATTTAAATT
1 -ATTTAAATT
10528542 ATCTTTCTTC
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
25 3 0.06
26 20 0.41
27 1 0.02
28 9 0.18
29 1 0.02
30 15 0.31
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTAAATTTAATTTTTTCTCATTTT
Found at i:10528556 original size:56 final size:56
Alignment explanation
Indices: 10528450--10528556 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
10528440 TATTTTTTTC
*
10528450 CATTTAAATTTAATTTTTTCTCATTTTATTTAAATTATCTACCTTTCCATTCATTT
1 CATTTAAATTTAATTTTTTCTCATTTTATTTAAATTATCTACCTTCCCATTCATTT
* **
10528506 CATTTAAATTTATTTTTTTCTC-TTTTCATTTAAATTATCTTTCTTCCCATT
1 CATTTAAATTTAATTTTTTCTCATTTT-ATTTAAATTATCTACCTTCCCATT
10528557 TTAATTTACG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
55 4 0.09
56 42 0.91
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (56 bp):
CATTTAAATTTAATTTTTTCTCATTTTATTTAAATTATCTACCTTCCCATTCATTT
Found at i:10531867 original size:168 final size:164
Alignment explanation
Indices: 10531610--10531975 Score: 445
Period size: 169 Copynumber: 2.2 Consensus size: 164
10531600 TGAAAATTGA
* * *
10531610 ACTTGGTGCCTG-CCATCTAC-TAGCCAGCACCAAAAAATTTTTTTTTACAATACATTGGTGCTG
1 ACTTGGTGCC-GACCAT-TACATGGCCAGCACCAAAAAATTTTTTTTTACAATACACTGGTGCAG
* * * * * *
10531673 GTCATTAGTGTCCCAAAATAAAAAAAAA-TTTCCTTGGGGACCAAAAATTGTACTTGCTGCTGGC
64 GCCATCAGTGTCCCAAAATAAAAAAAAAGTGT-CTTGGGAACCAAAAATTGTACCTGCTGCCGGC
10531737 CATCTACTGACCAGCACAAAAAAACATTTTTTATTAAATGT
128 CATCTACTGACCAGCAC--AAAAA-ATTTTTT-TTAAATGT
* *
10531778 ACTTGGTGCCGACCATTACATGGCCATCACCAAAAATTTTAATTTTTTA-AATACACTGGTGCAG
1 ACTTGGTGCCGACCATTACATGGCCAGCACCAAAAAATTT--TTTTTTACAATACACTGGTGCAG
* * * *
10531842 GCCATCAGTGTCCCAAAGTAAAAAAAAAGTGTCTTGGGAACCGAAAATTGTACCTGGTGCCGGTC
64 GCCATCAGTGTCCCAAAATAAAAAAAAAGTGTCTTGGGAACCAAAAATTGTACCTGCTGCCGGCC
* *
10531907 ATCTACTGACCAGCACCAAAAATTTTTTTTTAATGT
129 ATCTACTGACCAGCACAAAAAATTTTTTTTAAATGT
*
10531943 -CTCTGGTGCCGACCATTACATGGCCAGAACCAA
1 ACT-TGGTGCCGACCATTACATGGCCAGCACCAA
10531976 TTTTTTTAAA
Statistics
Matches: 173, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
164 2 0.01
165 35 0.20
166 7 0.04
167 8 0.05
168 31 0.18
169 81 0.47
170 9 0.05
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (164 bp):
ACTTGGTGCCGACCATTACATGGCCAGCACCAAAAAATTTTTTTTTACAATACACTGGTGCAGGC
CATCAGTGTCCCAAAATAAAAAAAAAGTGTCTTGGGAACCAAAAATTGTACCTGCTGCCGGCCAT
CTACTGACCAGCACAAAAAATTTTTTTTAAATGT
Found at i:10534732 original size:5 final size:6
Alignment explanation
Indices: 10534716--10534740 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10534706 GGAAGTAGTC
10534716 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
10534741 AAATATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:10538969 original size:98 final size:98
Alignment explanation
Indices: 10538790--10538986 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 98
10538780 GTACAATAAA
* *
10538790 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGTACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGTACAATT
* *
10538855 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
* * *
10538888 ACTTTAAAAGAACATCCACTTGTCCAAGATTTAAGAAATCACATCCAATACGTTAGGGTACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGTACAATT
* *
10538953 CCTTTAAAATCTCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
10538986 A
1 A
10538987 TAATTTTTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGTACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:10541203 original size:86 final size:85
Alignment explanation
Indices: 10541097--10541290 Score: 228
Period size: 84 Copynumber: 2.3 Consensus size: 85
10541087 TCTTGAGTCT
* * ** *
10541097 ACTCCACTGCAACTTTAGGGAGATTAAGACCCGATGTGATTTACTCTACTGCAACTTCAGAGAGA
1 ACTCCACTGCAACTTCAGGGAGATTAAGACCAGATACGATCTACTCT-CTGCAACTTCAGAGAGA
* * *
10541162 TAAGATCTGCGATTATAATCT
65 TAAGATATGAGATTATAATCC
* * * * *
10541183 GCTCCACTACAACTTCAGGGAGA-TAAGGCTAGATACGATCTACTCTCTGCATCTTCAGAGAGAT
1 ACTCCACTGCAACTTCAGGGAGATTAAGACCAGATACGATCTACTCTCTGCAACTTCAGAGAGAT
* *
10541247 AAGATATGAGGTTTTAATCC
66 AAGATATGAGATTATAATCC
*
10541267 ACTCCACTGTAACTTCAGGGAGAT
1 ACTCCACTGCAACTTCAGGGAGAT
10541291 AGGATTATCG
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
84 52 0.58
85 17 0.19
86 20 0.22
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (85 bp):
ACTCCACTGCAACTTCAGGGAGATTAAGACCAGATACGATCTACTCTCTGCAACTTCAGAGAGAT
AAGATATGAGATTATAATCC
Found at i:10541372 original size:45 final size:45
Alignment explanation
Indices: 10541009--10541426 Score: 148
Period size: 44 Copynumber: 9.6 Consensus size: 45
10540999 TCTCGATCTA
* * * ** *
10541009 CTCCACTGCAACGTCGGGGAGATAGGA-TTGATATGTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTTAGTCTG
* * * * *
10541053 -TCCCACAGCAATTTCAAGGG-GATAAGACTTG-CTTTCTTGAGTCTA
1 CT-CCACTGCAACTTC-AGGGAGATAAGACTTGCCATGCTT-AGTCTG
* * * *
10541098 CTCCACTGCAACTTTAGGGAGATTAAGAC---CCGATG-TGA-TTTA
1 CTCCACTGCAACTTCAGGGAGA-TAAGACTTGCC-ATGCTTAGTCTG
* * * *
10541140 CTCTACTGCAACTTCAGAGAGATAAGA-TCTGCGAT--TATAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCCATGCT-TAGTCTG
* * * * * *
10541184 CTCCACTACAACTTCAGGGAGATAAGGCTAG--ATAC-GA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTTAGTCTG
* * * * * * **
10541225 CT-CTCTGCATCTTCAGAGAGATAAGA-TATG--AGGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCCATG-CTTAGTCTG
* * ** * *
10541268 CTCCACTGTAACTTCAGGGAGATAGGA-TTATC-GGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGC-TTAGTCTG
* *
10541312 CTCCACCGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTT-AGTCTG
* **
10541357 C-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATGCTTAGTCTG
10541402 CTCCACTGCAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
10541427 AACTACATGC
Statistics
Matches: 276, Mismatches: 64, Indels: 67
0.68 0.16 0.16
Matches are distributed among these distances:
39 1 0.00
40 21 0.08
41 10 0.04
42 27 0.10
43 11 0.04
44 109 0.39
45 84 0.30
46 13 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATGCTTAGTCTG
Found at i:10541579 original size:45 final size:46
Alignment explanation
Indices: 10541505--10541626 Score: 144
Period size: 45 Copynumber: 2.7 Consensus size: 46
10541495 CGGCTTTAAT
* *
10541505 CTGCTCCACCGCAACTTCA-GAGAGATAAGATTTGCCATCTTCAGC
1 CTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCCATCTTCAGC
** * * *
10541550 CTGC-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTTGTTTAGT
1 CTGCTC-CACTGCAACTTCAGGAGAGATAAGACTTGCCATCTTCAGC
10541595 CTGCTCCACTGCAACTTCAGG-GAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGAGAGATAAGACT
10541627 AGATGCGATC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 2 0.03
45 60 0.91
46 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (46 bp):
CTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCCATCTTCAGC
Found at i:10542857 original size:31 final size:31
Alignment explanation
Indices: 10542819--10542881 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
10542809 TAACTGAGTC
* *
10542819 TGAATTTACAGGATTCGAAATATTTTTGCCA
1 TGAATTTACAGGATTCGAAAGAGTTTTGCCA
*
10542850 TGAATTTACAGGATTCGGAAGAGTTTTGCCA
1 TGAATTTACAGGATTCGAAAGAGTTTTGCCA
10542881 T
1 T
10542882 CCATTTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (31 bp):
TGAATTTACAGGATTCGAAAGAGTTTTGCCA
Found at i:10544903 original size:17 final size:17
Alignment explanation
Indices: 10544852--10544910 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
10544842 CTTGGTTGTC
10544852 CAAATCAAGGCGCAACA
1 CAAATCAAGGCGCAACA
*
10544869 CAATTTTTCAATAGGCGCAACA
1 CAA---ATC-A-AGGCGCAACA
10544891 CAAATCAAGGCGCAACA
1 CAAATCAAGGCGCAACA
10544908 CAA
1 CAA
10544911 TCCAGTCGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 16 0.46
18 1 0.03
19 2 0.06
20 2 0.06
21 1 0.03
22 13 0.37
ACGTcount: A:0.44, C:0.27, G:0.15, T:0.14
Consensus pattern (17 bp):
CAAATCAAGGCGCAACA
Found at i:10558723 original size:98 final size:98
Alignment explanation
Indices: 10558544--10558740 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
10558534 GTACAATAAA
* *
10558544 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
* *
10558609 CCTCTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
10558642 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
*
10558707 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
10558740 A
1 A
10558741 TAATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:10563286 original size:14 final size:14
Alignment explanation
Indices: 10563267--10563293 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10563257 CTTTTTCACA
10563267 AAACTTTATTGGAC
1 AAACTTTATTGGAC
10563281 AAACTTTATTGGA
1 AAACTTTATTGGA
10563294 ATTTGGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
AAACTTTATTGGAC
Found at i:10564399 original size:19 final size:20
Alignment explanation
Indices: 10564364--10564424 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
10564354 TAATTATTTA
* *
10564364 TTAAATTTAAT-TAAAATAT
1 TTAAATATAATATTAAATAT
10564383 TTAAACTAT-AT-TTAAATAT
1 TTAAA-TATAATATTAAATAT
10564402 TTAAATATAATAATTAAATAT
1 TTAAATATAAT-ATTAAATAT
10564423 TT
1 TT
10564425 GTAATTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 3 0.08
19 21 0.58
20 2 0.06
21 10 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAATATAATATTAAATAT
Found at i:10564420 original size:21 final size:21
Alignment explanation
Indices: 10564371--10564424 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 21
10564361 TTATTAAATT
10564371 TAATTAAAATATTTAAACTATA
1 TAATT-AAATATTTAAACTATA
10564393 T--TTAAATATTTAAA-TATAA
1 TAATTAAATATTTAAACTAT-A
10564412 TAATTAAATATTT
1 TAATTAAATATTT
10564425 GTAATTAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.10
19 13 0.45
20 2 0.07
21 10 0.34
22 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAAATATTTAAACTATA
Found at i:10564710 original size:17 final size:18
Alignment explanation
Indices: 10564688--10564721 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10564678 ATCTTTATTG
10564688 CTTTTTAA-GGAAAAACA
1 CTTTTTAATGGAAAAACA
10564705 CTTTTTAATGGAAAAAC
1 CTTTTTAATGGAAAAAC
10564722 TCATCTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (18 bp):
CTTTTTAATGGAAAAACA
Found at i:10569282 original size:27 final size:27
Alignment explanation
Indices: 10569220--10569283 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
10569210 GGACTACCAT
* * * *
10569220 AGGCGGCACCAATGGTGCCAGTGGCAA
1 AGGCAGCACCAAAGGTGCCACTGCCAA
* *
10569247 AGGCTGCACCAAAGGTGCCACTGCCAC
1 AGGCAGCACCAAAGGTGCCACTGCCAA
*
10569274 AGTCAGCACC
1 AGGCAGCACC
10569284 TGTAACACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.11
Consensus pattern (27 bp):
AGGCAGCACCAAAGGTGCCACTGCCAA
Found at i:10570051 original size:13 final size:13
Alignment explanation
Indices: 10570033--10570058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10570023 ACTAACTTCG
10570033 TAAATATTTATGA
1 TAAATATTTATGA
10570046 TAAATATTTATGA
1 TAAATATTTATGA
10570059 GTCCAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TAAATATTTATGA
Found at i:10570811 original size:159 final size:158
Alignment explanation
Indices: 10570547--10570972 Score: 712
Period size: 159 Copynumber: 2.7 Consensus size: 158
10570537 AAAAAAGAAG
*
10570547 AAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTA
1 AAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTA
* *
10570612 AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAACA-AAATACGAAAATAGTAT
66 AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAA-ATAAACACGAAAATAATAT
10570676 ATTTTTTGAAAGTAATAAAATCTGAAAAT
130 ATTTTTTGAAAGTAATAAAATCTGAAAAT
*
10570705 AAGAAAAATACGAATAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACT
1 AAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACT
* *
10570770 AAAATAATACATTTCAAACATTATGTACTAAAATAAAATAAAATAAATAGACACGAAAATAATAT
65 AAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAAATAAACACGAAAATAATAT
10570835 ATTTTTTGAAAGTAATAAAATCTGAAAAT
130 ATTTTTTGAAAGTAATAAAATCTGAAAAT
* *
10570864 AAGAAAAATACGAACAAATGACCAAAATGAA-GGTTTTTTACTAAATTTATATAAAAAACACACT
1 AAGAAAAATACGAACAAAGGGCCAAAAT-AAGGGTTTTTTACTAAATTTATATAAAAAACACACT
* * *
10570928 AAATTAATACATTTCAAACTTTATGTAATAAAATAATATAAAATA
65 AAAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATA
10570973 TAAAGTTTAA
Statistics
Matches: 252, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
158 104 0.41
159 146 0.58
160 2 0.01
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (158 bp):
AAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTA
AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAAATAAACACGAAAATAATATA
TTTTTTGAAAGTAATAAAATCTGAAAAT
Found at i:10571185 original size:128 final size:132
Alignment explanation
Indices: 10570987--10571242 Score: 367
Period size: 128 Copynumber: 2.0 Consensus size: 132
10570977 GTTTAAAATG
*
10570987 TATTAATTTAGTGTGTTTTTTTATATAAATTTAGTGAAAAACCCTCATTTTGGCAATTTGTTCGT
1 TATTAATTTAGTGTGTTGTTTTATATAAATTTAGTGAAAAACCCTCATTTTGGCAATTTGTTCGT
* * *
10571052 A-TTTT-TC-TTATTTTCGGATTTTATTATTTTAAAAAAATATATTATTTTCGTATTTTATTTTT
66 ATTTTTCTCTTTATTTTCGGATTTTATTACTTTAAAAAAATATACTATTTTCATATTTTATTTTT
10571114 TA
131 TA
* * *
10571116 TATTATTTTAGTGTG-TGTTTTATATAAATTTAGTGAAAAACCCTTATTTTGGCCATTTGTTCGT
1 TATTAATTTAGTGTGTTGTTTTATATAAATTTAGTGAAAAACCCTCATTTTGGCAATTTGTTCGT
* * * ** *
10571180 ATTTTTCTCTTTTTTTTTGGATTTTATTACTTTCAGTAAATATACTATTTTCATTTTTTATTT
66 ATTTTTCTCTTTATTTTCGGATTTTATTACTTTAAAAAAATATACTATTTTCATATTTTATTT
10571243 CTTTTTGTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
128 47 0.42
129 18 0.16
130 2 0.02
131 44 0.40
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.57
Consensus pattern (132 bp):
TATTAATTTAGTGTGTTGTTTTATATAAATTTAGTGAAAAACCCTCATTTTGGCAATTTGTTCGT
ATTTTTCTCTTTATTTTCGGATTTTATTACTTTAAAAAAATATACTATTTTCATATTTTATTTTT
TA
Found at i:10587976 original size:29 final size:30
Alignment explanation
Indices: 10587942--10588050 Score: 103
Period size: 33 Copynumber: 3.4 Consensus size: 30
10587932 AAATATGTTG
*
10587942 AATAATAATACTTAT-ATCTTTAATAATAC
1 AATAATAATACTTATAATATTTAATAATAC
10587971 AATAATAATACTTATAATATTTAATAATAATAC
1 AATAATAATACTTATAATA-TT--TAATAATAC
* *
10588004 AATAATAAAAATATTTAATAATATTTAATAATATTT
1 AATAAT---AATACTT-ATAATATTTAATAATA--C
10588040 AATAATAATAC
1 AATAATAATAC
10588051 AATAATAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
29 15 0.23
30 2 0.03
31 2 0.03
33 19 0.29
34 8 0.12
36 14 0.21
37 6 0.09
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (30 bp):
AATAATAATACTTATAATATTTAATAATAC
Found at i:10587989 original size:9 final size:10
Alignment explanation
Indices: 10587944--10588046 Score: 60
Period size: 10 Copynumber: 10.8 Consensus size: 10
10587934 ATATGTTGAA
10587944 TAATAATACT
1 TAATAATACT
10587954 T-AT-AT-CTT
1 TAATAATAC-T
*
10587962 TAATAATACAA
1 TAATAATAC-T
10587973 TAATAATACT
1 TAATAATACT
*
10587983 T-ATAATATT
1 TAATAATACT
*
10587992 TAATAATAAT
1 TAATAATACT
*
10588002 ACAATAATA--
1 -TAATAATACT
*
10588011 -AA-AATATT
1 TAATAATACT
*
10588019 TAATAATATT
1 TAATAATACT
*
10588029 TAATAATATT
1 TAATAATACT
10588039 TAATAATA
1 TAATAATA
10588047 ATACAATAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
6 4 0.05
7 3 0.04
8 4 0.05
9 14 0.18
10 35 0.45
11 17 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATAATACT
Found at i:10587999 original size:10 final size:10
Alignment explanation
Indices: 10587973--10588046 Score: 77
Period size: 10 Copynumber: 7.8 Consensus size: 10
10587963 AATAATACAA
*
10587973 TAATAATACT
1 TAATAATATT
10587983 T-ATAATATT
1 TAATAATATT
*
10587992 TAATAATAATA
1 TAATAAT-ATT
*
10588003 CAATAATA--
1 TAATAATATT
10588011 -AA-AATATT
1 TAATAATATT
10588019 TAATAATATT
1 TAATAATATT
10588029 TAATAATATT
1 TAATAATATT
10588039 TAATAATA
1 TAATAATA
10588047 ATACAATAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
9 10 0.18
10 31 0.56
11 8 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATAATATT
Found at i:10588007 original size:27 final size:28
Alignment explanation
Indices: 10587942--10588026 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 28
10587932 AAATATGTTG
* *
10587942 AATAATAATACTTAT-ATCTTTAATAAT
1 AATAACAATACTTATAATATTTAATAAT
*
10587969 ACAATAATAATACTTATAATATTTAATAAT
1 --AATAACAATACTTATAATATTTAATAAT
* * *
10587999 AAT-ACAATAATAAAAATATTTAATAAT
1 AATAACAATACTTATAATATTTAATAAT
10588026 A
1 A
10588027 TTTAATAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 21 0.42
28 3 0.06
29 15 0.30
30 11 0.22
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (28 bp):
AATAACAATACTTATAATATTTAATAAT
Found at i:10588041 original size:47 final size:46
Alignment explanation
Indices: 10587973--10588064 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 46
10587963 AATAATACAA
10587973 TAATAATACTTATAATATTTAATAATAATACAATAATAAAAATATT
1 TAATAATACTTATAATATTTAATAATAATACAATAATAAAAATATT
*
10588019 TAATAATATTTAATAATATTTAATAATAATACAATAATAAAAATAT
1 TAATAATACTT-ATAATATTTAATAATAATACAATAATAAAAATAT
10588065 GTTTAACAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 10 0.23
47 34 0.77
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (46 bp):
TAATAATACTTATAATATTTAATAATAATACAATAATAAAAATATT
Found at i:10588043 original size:27 final size:27
Alignment explanation
Indices: 10587943--10588043 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 27
10587933 AATATGTTGA
* * *
10587943 ATAATAATACTTATATCTTTAATAATACA
1 ATAATAATATTTA-ATATTTAATAATA-T
10587972 ATAATAATACTTATAATATTTAATAATAAT
1 ATAATAATA-TT-TAATATTTAATAAT-AT
* **
10588002 ACAATAATA-AAAATATTTAATAATAT
1 ATAATAATATTTAATATTTAATAATAT
*
10588028 TTAATAATATTTAATA
1 ATAATAATATTTAATA
10588044 ATAATACAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
26 9 0.16
27 17 0.29
29 9 0.16
30 20 0.34
31 3 0.05
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (27 bp):
ATAATAATATTTAATATTTAATAATAT
Found at i:10591443 original size:14 final size:15
Alignment explanation
Indices: 10591419--10591447 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10591409 TTACAAAATG
10591419 AAATGAAAAGAAAAA
1 AAATGAAAAGAAAAA
10591434 AAAT-AAAAGAAAAA
1 AAATGAAAAGAAAAA
10591448 TGCTCCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
AAATGAAAAGAAAAA
Found at i:10592305 original size:29 final size:29
Alignment explanation
Indices: 10592229--10592309 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
10592219 ATTTGTTAAT
* * *
10592229 GCACTTCGGTGCCACTCTGTTTTGATAAA
1 GCACTTCGATGCCACTCTATTCTGATAAA
** * **
10592258 GCACTTCGATGTTATTCTATTCTGATATT
1 GCACTTCGATGCCACTCTATTCTGATAAA
*
10592287 GTACTTCGATGCCACTCTATTCT
1 GCACTTCGATGCCACTCTATTCT
10592310 ATGATTATAC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (29 bp):
GCACTTCGATGCCACTCTATTCTGATAAA
Found at i:10593659 original size:45 final size:46
Alignment explanation
Indices: 10593608--10593744 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 46
10593598 TATGTGTTCT
10593608 CATGTAAGACCACGTCTGGGACGATGGCATCGATATATGTGATTA-
1 CATGTAAGACCACGTCTGGGACGATGGCATCGATATATGTGATTAG
* * *
10593653 CGTGTAAGACC-CTGT-TCGGGAC-AGTGGCACCG--ATATGAGA-TAG
1 CATGTAAGACCAC-GTCT-GGGACGA-TGGCATCGATATATGTGATTAG
*
10593696 CATGTAAGACCACGTCTGGGACGTTGGCATTGTTCGATATATGTGATTA
1 CATGTAAGACCACGTCTGGGACGATGGCA----TCGATATATGTGATTA
10593745 TCCGAGTATC
Statistics
Matches: 71, Mismatches: 7, Indels: 23
0.70 0.07 0.23
Matches are distributed among these distances:
42 2 0.03
43 29 0.41
44 5 0.07
45 24 0.34
47 2 0.03
49 7 0.10
50 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (46 bp):
CATGTAAGACCACGTCTGGGACGATGGCATCGATATATGTGATTAG
Found at i:10597653 original size:22 final size:23
Alignment explanation
Indices: 10597627--10597670 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
10597617 AATCCTTAAA
*
10597627 AAATAAATATTAAA-ACTAAAAC
1 AAATAAATACTAAATACTAAAAC
10597649 AAATAAATACTAAATACTAAAA
1 AAATAAATACTAAATACTAAAA
10597671 TATTCATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATAAATACTAAATACTAAAAC
Found at i:10603615 original size:40 final size:40
Alignment explanation
Indices: 10603584--10603661 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
10603574 GATTTGTGTC
* *
10603584 CACGTAAGC-AAATCGCGCTGACGTGGACGCGATGTCCTGA
1 CACGTAACCGAAATCGCGCTGACGTGGACGCGAT-TTCTGA
* *
10603624 CACGTACCCTGACATCGCGCTGACGTGGACGCGATTTC
1 CACGTAACC-GAAATCGCGCTGACGTGGACGCGATTTC
10603662 GCGAAAATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.22
41 2 0.06
42 23 0.72
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (40 bp):
CACGTAACCGAAATCGCGCTGACGTGGACGCGATTTCTGA
Found at i:10604914 original size:22 final size:23
Alignment explanation
Indices: 10604882--10604927 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
10604872 AGTAAAATAA
*
10604882 AAAATATAAAAAAATAGAAAAGT
1 AAAATATAAAAAAATAAAAAAGT
*
10604905 AAAATA-AAAAATATAAAAAAGT
1 AAAATATAAAAAAATAAAAAAGT
10604927 A
1 A
10604928 TGTAAGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAATATAAAAAAATAAAAAAGT
Found at i:10604935 original size:30 final size:30
Alignment explanation
Indices: 10604855--10604924 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
10604845 TGTATAAAGT
*
10604855 ATATAAAAAATTAGAAAAGTAAAATAAAAA
1 ATATAAAAAAATAGAAAAGTAAAATAAAAA
10604885 ATATAAAAAAATAGAAAAGTAAAATAAAAA
1 ATATAAAAAAATAGAAAAGTAAAATAAAAA
10604915 ATATAAAAAA
1 ATATAAAAAA
10604925 GTATGTAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (30 bp):
ATATAAAAAAATAGAAAAGTAAAATAAAAA
Found at i:10605106 original size:12 final size:12
Alignment explanation
Indices: 10605089--10605129 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
10605079 AATACAAAGG
*
10605089 TAATGATAGTAA
1 TAATGATAATAA
10605101 TAATGATAATATA
1 TAATGATAATA-A
10605114 TAAT-ATAATAA
1 TAATGATAATAA
10605125 TAATG
1 TAATG
10605130 TTTTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 5 0.19
12 16 0.62
13 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAATGATAATAA
Found at i:10605563 original size:7 final size:8
Alignment explanation
Indices: 10605544--10605573 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10605534 ATTTACAGTA
*
10605544 AAAAAAAG
1 AAAAAAAT
10605552 AAAAAAAT
1 AAAAAAAT
10605560 AAAAAAAT
1 AAAAAAAT
10605568 AAAAAA
1 AAAAAA
10605574 GATGAGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (8 bp):
AAAAAAAT
Found at i:10612143 original size:26 final size:26
Alignment explanation
Indices: 10612088--10612144 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
10612078 TCTAAAATTA
* ** *
10612088 AAAG-ATAAATAAATTTGGAATAATT
1 AAAGAATAAAAAAATTAAGAATAAAT
*
10612113 TAAGAATAAAAAAATTAAGAATAAAT
1 AAAGAATAAAAAAATTAAGAATAAAT
10612139 AAAGAA
1 AAAGAA
10612145 AGATGGAAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (26 bp):
AAAGAATAAAAAAATTAAGAATAAAT
Found at i:10614011 original size:17 final size:16
Alignment explanation
Indices: 10613970--10614013 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
10613960 TACCCAAAAC
*
10613970 AAATTATAAATTTATAA
1 AAATTATAAATATAT-A
*
10613987 AAAATATAAATATATA
1 AAATTATAAATATATA
10614003 AAATGTATAAA
1 AAAT-TATAAA
10614014 AAAAATTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AAATTATAAATATATA
Found at i:10615120 original size:23 final size:23
Alignment explanation
Indices: 10615089--10615144 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
10615079 TCTTTGTATA
* *
10615089 TTTA-AAATTTAGTATTTTTATT
1 TTTATAAATTTAGTATCTCTATT
*
10615111 TTTATAAATTTAGTCTCTCTATT
1 TTTATAAATTTAGTATCTCTATT
10615134 TTT-TAAATTTA
1 TTTATAAATTTA
10615145 AAAGTTCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATAAATTTAGTATCTCTATT
Found at i:10620767 original size:7 final size:6
Alignment explanation
Indices: 10620751--10620815 Score: 51
Period size: 6 Copynumber: 10.2 Consensus size: 6
10620741 TGTTTCCTGC
* *
10620751 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
*
10620801 AGGAAAAT TAAAAT A
1 A--AAAAT AAAAAT A
10620816 TTTTTTTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.10
6 27 0.56
7 7 0.15
8 9 0.19
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:10628774 original size:22 final size:22
Alignment explanation
Indices: 10628745--10628797 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
10628735 TAAATTCAGA
*
10628745 TAAA-TAAAAAAATTCAAATGT
1 TAAATTAAAAAAATTCAAATAT
**
10628766 TAAATTAAAAAGGTTCAAATAT
1 TAAATTAAAAAAATTCAAATAT
*
10628788 CAAATTAAAA
1 TAAATTAAAA
10628798 TCCCTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (22 bp):
TAAATTAAAAAAATTCAAATAT
Found at i:10631819 original size:30 final size:30
Alignment explanation
Indices: 10631785--10631888 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 30
10631775 TATCTATAAT
10631785 TAAATTTGAGGATCAAATTGATTGAATTTG
1 TAAATTTGAGGATCAAATTGATTGAATTTG
* * * * *
10631815 TAAATGTGAAGGGTTAAATTTATTGAATTATT
1 TAAATTTG-AGGATCAAATTGATTGAATT-TG
* *
10631847 TAGAA-TT-AGGATCAAATTGATAGAATATG
1 TA-AATTTGAGGATCAAATTGATTGAATTTG
*
10631876 TAAGTATTGAGGA
1 TAAAT-TTGAGGA
10631889 CTAAATCTAT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
28 1 0.02
29 3 0.05
30 24 0.44
31 21 0.38
32 4 0.07
33 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (30 bp):
TAAATTTGAGGATCAAATTGATTGAATTTG
Found at i:10633068 original size:8 final size:9
Alignment explanation
Indices: 10633057--10633096 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
10633047 AATAACAAAA
10633057 AAAAAAC-T
1 AAAAAACTT
10633065 AAAAAA-TT
1 AAAAAACTT
10633073 AAAAAACTT
1 AAAAAACTT
10633082 AAAAAACTT
1 AAAAAACTT
10633091 AAAAAA
1 AAAAAA
10633097 ATATTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAACTT
Found at i:10633078 original size:18 final size:20
Alignment explanation
Indices: 10633055--10633097 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 20
10633045 AAAATAACAA
10633055 AAAAAAAAC-TAAAAAA-TT
1 AAAAAAAACTTAAAAAACTT
10633073 --AAAAAACTTAAAAAACTT
1 AAAAAAAACTTAAAAAACTT
10633091 AAAAAAA
1 AAAAAAA
10633098 TATTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 2 0.10
20 5 0.24
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAAACTTAAAAAACTT
Found at i:10634899 original size:3 final size:3
Alignment explanation
Indices: 10634893--10634919 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10634883 ACTATGAGGG
10634893 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
10634920 TGATGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10637873 original size:5 final size:5
Alignment explanation
Indices: 10637863--10637914 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
10637853 TGAAGTTTTC
* *
10637863 TCGAA TCGAA TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA -TCGAA TCGAA TCGAA TCGAA TCGAA
10637914 T
1 T
10637915 ATATTTGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 2 0.05
5 33 0.80
6 6 0.15
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:10637914 original size:26 final size:26
Alignment explanation
Indices: 10637863--10637914 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10637853 TGAAGTTTTC
* *
10637863 TCGAATCGAATCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
10637889 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
10637915 ATATTTGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:10646404 original size:18 final size:17
Alignment explanation
Indices: 10646383--10646428 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
10646373 TTTTTTAAGA
10646383 GTTTAAGGTTTTTCTAGG
1 GTTT-AGGTTTTTCTAGG
*
10646401 GTTTAGGATTTTTGTAGG
1 GTTTAGG-TTTTTCTAGG
10646419 GTTTAGGTTT
1 GTTTAGGTTT
10646429 GGAAATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.15, C:0.02, G:0.30, T:0.52
Consensus pattern (17 bp):
GTTTAGGTTTTTCTAGG
Found at i:10649053 original size:24 final size:24
Alignment explanation
Indices: 10649025--10649073 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10649015 CCTCCTCCGA
10649025 TAGAATATATGGCTTGCCATGATG
1 TAGAATATATGGCTTGCCATGATG
10649049 TAGAATATATGGCTTGCCATGATG
1 TAGAATATATGGCTTGCCATGATG
10649073 T
1 T
10649074 CTGAACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (24 bp):
TAGAATATATGGCTTGCCATGATG
Found at i:10652092 original size:16 final size:16
Alignment explanation
Indices: 10652055--10652092 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10652045 AAAGTTTTTA
10652055 TTTTTTCTGTTTCTCC
1 TTTTTTCTGTTTCTCC
* *
10652071 TATTTTCTTTTTCTCC
1 TTTTTTCTGTTTCTCC
10652087 TTTTTT
1 TTTTTT
10652093 TCTCTGCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTCTGTTTCTCC
Found at i:10659798 original size:28 final size:27
Alignment explanation
Indices: 10659731--10659798 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
10659721 TTTTGTGTGC
* * * * *
10659731 GCCACAAAGGCGTTCTTTTCTTCATTT
1 GCCACAAAGGCTTTCTTTCCTTAAATA
10659758 GCCAC-AAGAGCTTTCCTTTCCTTAAATA
1 GCCACAAAG-GCTTT-CTTTCCTTAAATA
10659786 GCCACAAAGGCTT
1 GCCACAAAGGCTT
10659799 CTATCTCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 3 0.09
27 9 0.27
28 18 0.55
29 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (27 bp):
GCCACAAAGGCTTTCTTTCCTTAAATA
Found at i:10659820 original size:27 final size:27
Alignment explanation
Indices: 10659786--10659886 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
10659776 TCCTTAAATA
* *
10659786 GCCACAAAGGCTTCTATCTCATAGATT
1 GCCACAAAGACTTCTATTTCATAGATT
* *
10659813 GCCACAAAAACTTCTATTTTATAGATT
1 GCCACAAAGACTTCTATTTCATAGATT
* * *
10659840 GCCACAAAGATTTCCATTTCATAAATT
1 GCCACAAAGACTTCTATTTCATAGATT
* *
10659867 GTCACCAAAGGCTTCTATTT
1 GCCA-CAAAGACTTCTATTT
10659887 TCTAGCGCAT
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 48 0.80
28 12 0.20
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (27 bp):
GCCACAAAGACTTCTATTTCATAGATT
Found at i:10661717 original size:41 final size:41
Alignment explanation
Indices: 10661572--10661715 Score: 216
Period size: 41 Copynumber: 3.5 Consensus size: 41
10661562 GACTTTTGGT
* * *
10661572 CTGCTAGACTTAAAGTCCGAAATGTTTCACCGGTATCAAGC
1 CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
*
10661613 CTGCTAGACATAAAGTCTGAAATGTTTCACCGACATCAAGC
1 CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
* *
10661654 CTGCTAGACATAAAGTCTGAATTGTTTCACCGGCATCTAGC
1 CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
* *
10661695 CTACTAGACATAGAGTCTGAA
1 CTGCTAGACATAAAGTCTGAA
10661716 TTATCTCACT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
Found at i:10673904 original size:3 final size:3
Alignment explanation
Indices: 10673891--10673936 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
10673881 TCATGATACC
*
10673891 ATT ATTT ATT ATT A-T ATT ATTT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
10673937 TCTATATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10673911 original size:15 final size:15
Alignment explanation
Indices: 10673891--10673935 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
10673881 TCATGATACC
10673891 ATTATTTATTATTAT
1 ATTATTTATTATTAT
*
10673906 ATTATTTATTATCATT
1 ATTATTTATTATTA-T
10673922 ATTA-TTATTATTAT
1 ATTATTTATTATTAT
10673936 TTCTATATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 1 0.04
15 21 0.78
16 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTATTATTAT
Found at i:10673990 original size:22 final size:23
Alignment explanation
Indices: 10673964--10674045 Score: 87
Period size: 22 Copynumber: 3.6 Consensus size: 23
10673954 GCATTGTTTT
10673964 TTTTATATAATATATATGCATT-
1 TTTTATATAATATATATGCATTA
* * *
10673986 TTTTATATAGTATACACGCATTA
1 TTTTATATAATATATATGCATTA
* *
10674009 TTTT-TATTATATATATGCATTTC
1 TTTTATATAATATATATGCA-TTA
*
10674032 TTTTATATAGTATA
1 TTTTATATAATATA
10674046 CGTATACCTG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 30 0.64
23 10 0.21
24 7 0.15
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (23 bp):
TTTTATATAATATATATGCATTA
Found at i:10677309 original size:13 final size:13
Alignment explanation
Indices: 10677291--10677315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10677281 GCTTCCACGT
10677291 TGCATTGCCTTGA
1 TGCATTGCCTTGA
10677304 TGCATTGCCTTG
1 TGCATTGCCTTG
10677316 TCACATCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (13 bp):
TGCATTGCCTTGA
Found at i:10677320 original size:54 final size:54
Alignment explanation
Indices: 10677250--10677356 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
10677240 GCTTCAACTT
* *
10677250 TGCATTGTCTTCTCACATCATGATCATGGTTGCTTCCACGTTGCATTGCCTTGA
1 TGCATTGCCTTCTCACATCATGAACATGGTTGCTTCCACGTTGCATTGCCTTGA
* * * *
10677304 TGCATTGCCTTGTCACATCATGAACATGGTTGGTTTCACGTTGCATTGTCTTG
1 TGCATTGCCTTCTCACATCATGAACATGGTTGCTTCCACGTTGCATTGCCTTG
10677357 TCACATCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
TGCATTGCCTTCTCACATCATGAACATGGTTGCTTCCACGTTGCATTGCCTTGA
Found at i:10677392 original size:44 final size:41
Alignment explanation
Indices: 10677304--10677392 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 41
10677294 ATTGCCTTGA
* *
10677304 TGCATTGCCTTGTCACATCATGAACATGGTTGGTTTCACGT
1 TGCATTGCCTTGTCACATCATGAACATGGTTGCTTCCACGT
*
10677345 TGCATTGTCTTGTCACATCATTGATTTA-ATGGTTGCTTCCACGT
1 TGCATTGCCTTGTCACATCA-TGA---ACATGGTTGCTTCCACGT
10677389 TGCA
1 TGCA
10677393 ATCTTTTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 19 0.46
42 3 0.07
44 18 0.44
45 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
TGCATTGCCTTGTCACATCATGAACATGGTTGCTTCCACGT
Found at i:10687103 original size:6 final size:6
Alignment explanation
Indices: 10687088--10687119 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10687078 AATAGAGAGC
10687088 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
10687120 GCAGTGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:10688909 original size:47 final size:47
Alignment explanation
Indices: 10688840--10688936 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
10688830 ACTTTGATGT
10688840 AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
1 AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
*
10688887 AGTTTATTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
1 AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
10688934 AGT
1 AGT
10688937 GATTTCGTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (47 bp):
AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
Done.